genome.fa.s8488.2.7.7.80.10.50.1000.21.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  21  of  54  ( 6450 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5244813--5244839	14	1.9	14	100	0	54	11	14	0	74	1.08
5246714--5246755	19	2.2	19	83	8	50	59	0	16	23	1.37
5247197--5247314	58	2.0	60	91	6	197	29	15	15	39	1.88
5257867--5257916	26	2.1	24	85	14	68	46	0	2	52	1.12
5259367--5259425	21	2.7	23	80	15	70	66	3	3	27	1.24
5259883--5260163	139	2.0	140	99	0	555	25	23	14	36	1.93
5260912--5260999	3	28.7	3	84	8	99	64	0	1	34	1.01
5260913--5261010	23	4.1	23	74	10	72	65	0	3	31	1.08
5261167--5261575	45	9.1	45	93	0	667	34	20	22	22	1.97
5261426--5261501	26	3.2	26	62	30	69	32	19	23	23	1.97
5262340--5262381	22	1.9	22	90	0	66	35	14	7	42	1.73
5262747--5262908	54	3.0	54	86	5	229	26	21	14	37	1.92
5267470--5267496	14	1.9	14	100	0	54	0	18	0	81	0.69
5267773--5267830	2	29.0	2	100	0	116	50	0	0	50	1.00
5272326--5272386	29	2.2	29	85	5	81	62	1	4	31	1.26
5272339--5272397	29	2.0	29	83	0	73	61	1	5	32	1.28
5272911--5272954	21	2.0	21	82	8	52	45	2	2	50	1.27
5273285--5273357	17	4.1	17	83	15	69	69	1	1	27	1.04
5273283--5273336	24	2.3	24	81	18	69	68	0	0	31	0.90
5273301--5273351	28	1.9	25	80	11	57	70	1	1	25	1.08
5274738--5274800	3	20.7	3	90	9	101	65	0	0	34	0.93
5275373--5275513	35	4.0	35	72	5	122	28	15	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5278602--5278639	20	1.9	20	88	0	58	23	34	28	13	1.92
5284544--5284576	13	2.5	13	90	9	50	30	18	6	45	1.73
5294746--5294856	53	2.1	53	93	0	186	25	18	18	36	1.94
5295494--5295520	2	13.5	2	100	0	54	48	0	0	51	1.00
5295697--5295730	11	2.8	12	86	13	52	50	0	0	50	1.00
5296149--5296183	13	2.5	14	90	9	54	57	0	5	37	1.23
5296570--5296628	27	2.2	26	85	11	75	42	0	3	54	1.17
5296849--5296911	30	2.1	30	90	0	99	46	1	1	50	1.20
5297843--5298198	177	2.0	177	100	0	712	33	17	9	39	1.82
5305259--5305323	3	21.7	3	96	0	121	64	0	1	33	1.03
5311240--5311288	18	2.7	19	78	9	57	30	4	2	63	1.24
5312010--5312040	12	2.6	12	94	0	53	12	22	45	19	1.84
5312038--5312143	39	2.8	39	78	10	107	45	0	0	54	0.99
5315388--5315448	23	2.7	23	97	0	113	13	32	29	24	1.93
5324237--5324285	2	24.5	2	100	0	98	51	0	0	48	1.00
5323914--5325213	426	3.0	427	90	2	1960	30	16	17	35	1.92
5326691--5326848	54	2.9	54	85	1	201	35	19	17	27	1.94
5328949--5329128	54	3.3	54	85	1	236	31	22	19	26	1.98
5331948--5332130	60	3.0	60	78	6	199	41	6	21	31	1.77
5335061--5335092	15	2.2	15	94	5	57	65	0	3	31	1.08
5337013--5338449	258	5.4	257	79	9	1510	33	18	16	31	1.93
5337494--5337627	42	3.2	42	84	1	180	32	23	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5337781--5337887	42	2.6	41	75	11	110	30	22	20	26	1.98
5337557--5338449	256	3.5	254	85	3	1202	33	18	17	30	1.94
5338515--5338594	42	1.9	42	86	0	115	33	20	21	25	1.97
5348156--5348195	21	1.9	21	89	0	62	65	0	2	32	1.06
5348124--5348198	3	25.3	3	69	17	50	66	1	2	29	1.13
5349276--5349315	21	1.9	21	94	0	71	27	20	20	32	1.97
5349840--5349878	17	2.3	17	95	0	69	12	41	0	46	1.42
5351565--5351598	13	2.6	14	86	13	54	41	5	14	38	1.70
5352069--5352146	23	3.7	21	76	8	77	35	19	15	29	1.92
5354550--5354592	20	2.2	20	91	0	68	32	13	20	32	1.92
5358250--5358292	20	2.2	20	86	0	59	32	16	20	30	1.95
5361530--5361578	23	2.2	23	85	3	64	30	10	8	51	1.65
5361530--5361742	117	1.8	118	84	3	295	27	14	7	50	1.70
5363022--5363124	45	2.3	45	96	0	188	23	18	26	32	1.97
5363445--5363899	229	2.0	229	97	0	856	31	9	23	36	1.86
5364016--5364075	14	3.9	14	73	23	57	18	10	13	58	1.62
5364023--5364060	20	1.9	20	88	0	58	21	10	15	52	1.72
5363995--5364061	10	6.9	10	70	13	50	22	11	10	55	1.66
5364018--5364095	34	2.3	34	84	0	102	17	11	15	55	1.69
5364062--5364100	10	3.9	10	82	0	51	12	12	17	56	1.67
5370509--5370663	78	2.0	78	85	2	213	23	26	5	44	1.75
5371613--5371647	18	1.9	18	94	0	61	42	17	2	37	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5373096--5373146	23	2.2	23	85	0	66	15	19	25	39	1.91
5373112--5373157	23	2.0	23	86	0	65	15	23	23	36	1.93
5380237--5380305	23	3.0	23	80	0	84	18	24	24	31	1.98
5385827--5385868	21	2.0	22	86	13	61	40	2	0	57	1.12
5387586--5387639	22	2.5	22	73	11	56	38	20	9	31	1.84
5387916--5387964	6	8.2	6	95	0	89	34	46	16	2	1.58
5393517--5393570	22	2.5	22	71	0	54	38	24	9	27	1.86
5394307--5394336	14	2.1	14	100	0	60	10	30	6	53	1.60
5397648--5397860	112	1.9	112	91	1	347	40	10	12	36	1.78
5400764--5400815	17	3.0	16	78	18	52	69	1	5	23	1.20
5401053--5401089	2	18.5	2	100	0	74	51	0	0	48	1.00
5401106--5401194	35	2.5	37	88	3	128	53	5	4	35	1.45
5403228--5403476	100	2.4	103	83	4	306	23	19	22	34	1.96
5404580--5404622	16	2.7	15	82	10	50	4	11	2	81	0.93
5404660--5404708	24	2.0	24	88	0	71	6	14	0	79	0.91
5409396--5409431	17	2.1	18	94	5	65	30	13	27	27	1.94
5413745--5413779	18	1.9	18	88	0	52	17	22	28	31	1.96
5414367--5414403	3	12.3	3	100	0	74	35	0	0	64	0.94
5418959--5419016	30	1.9	29	86	13	82	15	8	3	72	1.23
5430602--5430791	98	1.9	98	86	0	272	36	20	20	23	1.95
5430631--5431182	280	2.0	272	90	3	854	34	23	19	22	1.96
5430903--5431120	106	2.1	106	85	3	296	34	24	19	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5434826--5434867	22	2.0	20	86	9	57	23	2	2	71	1.10
5440637--5440692	25	2.2	25	90	0	85	51	14	10	23	1.73
5445329--5445363	18	1.9	18	94	0	61	57	0	0	42	0.99
5449383--5449514	28	4.7	28	78	0	138	43	21	21	12	1.86
5449541--5449606	29	2.3	29	89	2	98	39	16	21	22	1.92
5449550--5449607	29	2.0	29	96	0	107	37	15	24	22	1.93
5451223--5451269	26	1.9	24	91	8	69	14	27	10	46	1.78
5453940--5454057	60	2.0	60	81	6	141	49	5	13	31	1.66
5455255--5455280	3	8.7	3	100	0	52	34	34	0	30	1.58
5456714--5456765	12	4.4	12	92	2	88	34	0	38	26	1.57
5457150--5457200	19	2.6	19	96	3	93	27	27	29	15	1.96
5461739--5461815	12	6.5	12	90	1	111	36	0	36	27	1.57
5461737--5461815	24	3.3	24	91	1	124	36	0	36	26	1.57
5461739--5461815	36	2.2	35	92	2	127	36	0	36	27	1.57
5466902--5467015	55	2.1	56	96	1	212	53	7	7	31	1.57
5467647--5467704	22	2.5	22	83	8	71	63	0	5	31	1.16
5468908--5468975	30	2.3	30	94	0	118	33	8	26	30	1.87
5469089--5469135	3	16.0	3	91	4	78	65	0	0	34	0.93
5469586--5469919	113	3.1	112	82	7	404	30	18	14	36	1.91
5471474--5471507	12	2.8	12	95	4	59	14	5	0	79	0.91
5471461--5471502	20	2.1	20	86	8	59	11	7	0	80	0.88
5471461--5471514	12	4.5	11	78	15	54	11	7	0	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5482925--5482997	30	2.4	30	81	4	85	64	4	1	30	1.20
5482955--5483007	20	2.8	18	72	13	52	66	1	1	30	1.13
5484387--5484432	3	16.0	3	86	8	69	65	0	0	34	0.93
5484387--5484448	22	2.8	22	82	7	72	62	1	3	32	1.20
5485522--5485573	24	2.1	25	82	3	61	71	3	11	13	1.28
5486837--5486927	6	13.4	7	75	15	68	70	0	4	25	1.06
5486841--5486929	9	9.2	9	72	20	65	70	0	4	24	1.05
5486835--5486929	28	3.2	30	78	17	108	71	0	4	24	1.03
5486838--5486909	3	24.3	3	78	18	64	70	0	4	25	1.04
5486981--5487426	40	11.3	38	82	10	483	45	5	3	45	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54